Experiment set8IT005 for Methanococcus maripaludis S2
Mc formate, casamino free, with 10mM L-Threonine
Group: nutrient t1Media: Mc_formate + L-Threonine (10 mM), pH=7
Culturing: Methanococcus_S2_ML1, 96 deep-well microplate; 1 mL volume, Anaerobic, at 37 (C)
By: Leslie Day on 2-Dec-22
Media components: 2.5 g/L Sodium bicarbonate, 10.5 g/L Sodium Chloride, 1 g/L Ammonium chloride, 0.14 g/L Potassium phosphate dibasic, 0.0095 g/L Iron (II) chloride tetrahydrate, 0.001 g/L resazurin sodium salt, 0.84 g/L Sodium acetate, 13.6 g/L Sodium Formate, 0.5 g/L Dithiothreitol, 0.001 g/L Sodium sulfide nonahydrate, MOPS_2M_pH7 (0.002 M 3-(N-morpholino)propanesulfonic acid, 0.0005 M Sodium Hydroxide), Mc_general_salts_SO4free (0.335 g/L Potassium Chloride, 5.6 g/L Magnesium chloride hexahydrate, 0.105 g/L Calcium chloride), Mc_trace_minerals_SO4free (0.021 g/L Trisodium citrate dihydrate, 0.005 g/L Manganese (II) chloride tetrahydrate, 0.001 g/L Cobalt chloride hexahydrate, 0.001 g/L Zinc chloride, 0.0001 g/L copper (II) chloride dihydrate, 0.0001 g/L Aluminum chloride hydrate, 0.0001 g/L Boric Acid, 0.001 g/L Sodium Molybdate Dihydrate, 0.00025 g/L Nickel (II) chloride hexahydrate, 0.002 g/L Sodium selenate, 0.0001 g/L vanadium chloride, 3.3e-05 g/L Sodium tungstate dihydrate), Mc_vitamins (2e-05 g/L biotin, 2e-05 g/L Folic Acid, 0.0001 g/L Pyridoxine HCl, 5e-05 g/L Thiamine HCl, 5e-05 g/L Riboflavin, 5e-05 g/L Nicotinic Acid, 5e-05 g/L calcium pantothenate, 1e-06 g/L Cyanocobalamin, 5e-05 g/L 4-Aminobenzoic acid, 5e-05 g/L Lipoic acid)
Specific Phenotypes
For 3 genes in this experiment
For nutrient t1 L-Threonine in Methanococcus maripaludis S2
For nutrient t1 L-Threonine across organisms
SEED Subsystems
| Subsystem | #Specific |
|---|---|
| Folate Biosynthesis | 1 |
Metabolic Maps
Color code by fitness: see overview map or list of maps.
Maps containing gene(s) with specific phenotypes:
- Purine metabolism
- Pyrimidine metabolism
- Nicotinate and nicotinamide metabolism
- Biosynthesis of alkaloids derived from histidine and purine
MetaCyc Pathways
Pathways that contain genes with specific phenotypes:
| Pathway | #Steps | #Present | #Specific |
|---|---|---|---|
| NAD salvage pathway III (to nicotinamide riboside) | 3 | 1 | 1 |
| UTP and CTP dephosphorylation I | 7 | 5 | 2 |
| purine nucleotides degradation II (aerobic) | 11 | 6 | 3 |
| guanosine nucleotides degradation III | 4 | 2 | 1 |
| inosine 5'-phosphate degradation | 4 | 2 | 1 |
| adenosine nucleotides degradation I | 8 | 3 | 2 |
| purine nucleotides degradation I (plants) | 12 | 4 | 3 |
| guanosine nucleotides degradation II | 4 | 1 | 1 |
| guanosine nucleotides degradation I | 4 | 1 | 1 |
| adenosine nucleotides degradation II | 5 | 2 | 1 |
| superpathway of purines degradation in plants | 18 | 4 | 3 |
| superpathway of guanosine nucleotides degradation (plants) | 6 | 1 | 1 |
| ureide biosynthesis | 7 | 2 | 1 |
| tunicamycin biosynthesis | 9 | 1 | 1 |
| NAD salvage (plants) | 11 | 1 | 1 |